// Copyright (C) 2010  Andrew H. Chan
//
// This program is free software: you can redistribute it and/or modify
// it under the terms of the GNU General Public License as published by
// the Free Software Foundation, either version 3 of the License, or
// (at your option) any later version.
// 
// This program is distributed in the hope that it will be useful,
// but WITHOUT ANY WARRANTY; without even the implied warranty of
// MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE.  See the
// GNU General Public License for more details.

// The InputParser class parses the input file.

#ifndef _INPUT_PARSER_H__
#define _INPUT_PARSER_H__

#include "typedefs.h"

class InputParser {
    public:
        InputParser(); // Default constructor
        int renormalize_PIM();
        int parse(std::string file_name);

        size_t num_loci;
        size_t num_alleles;
        vd2 pim_vectors;
        double rho; 
        double mut;
        individuals_t individuals;
};

#endif
